Life Technologies Corporation

Applied Biosystems, LLC

Applera Corporation

Integrated Dna Technologies, Inc.

Other

Pall Corporation

Pe Corporation (ny)

Pe Corporation

Caifu Chen

Ruoying Tan

Kai Qin Lao

Neil A Straus

Zhaohui Zhou

Dana Ridzon

Michael Egholm

Mirna Jarosz

Joseph Alan Walder

Shoulian Dong

Kelly Li

Yu Zheng

Zachary Zwirko

Adam Broomer

Karl J Guegler

Chunmei Liu

Mark Aaron Behlke

Garrett Richard Rettig

Joseph R Dobosy

Yalei Wu

David Keys

Linda Wong

Andreas Tobler

Kenneth J Livak

Mark R Andersen

Richard Owczarzy

Lawrence A Haff

Casey R McFarland

Kevin Hennessy

Ryan T Koehler

Gary Schroth

Vinod Mirchandani

Charles Scafe

Teodoro Paner

Andrew K Finn

David N Keys, Jr

Joseph Walder

Joseph Dobosy

Casey R Mcfarland

Jr David N Keys

Andrew c/o Ab Applied Biosystems Finn

Methods for detecting on-target and predicted off-target genome editing events by providing a multiplex PCR reaction mixture with an on-target oligonucleotide primer and one or more off-target oligonucleotide primers and then hybridizing the on-target oligonucleotide primer and the one or more off-target oligonucleotide primers to target nucleic acid sequences, followed by cleaving blocking groups from the primers and extending the primers.

Method for detecting on-target and predicted off-target genome editing events

The present invention is directed to methods, reagents, kits, and compositions for identifying and quantifying target polynucleotide sequences. A linker probe comprising a 3′ target specific portion, a loop, and a stem is hybridized to a target polynucleotide and extended to form a reaction product that includes a reverse primer portion and the stem nucleotides. A detector probe, a specific forward primer, and a reverse primer can be employed in an amplification reaction wherein the detector probe can detect the amplified target polynucleotide based on the stem nucleotides introduced by the linker probe. In some embodiments a plurality of short miRNAs are queried with a plurality of linker probes, wherein the linker probes all comprise a universal reverse primer portion a different 3′ target specific portion and different stems. The plurality of queried miRNAs can then be decoded in a plurality of amplification reactions.

Methods, compositions, and kits comprising linker probes for quantifying polynucleotides

The invention pertains to construction of next-generation DNA sequencing (NGS) libraries for whole genome sequencing, targeted resequencing, sequencing-based screening assays, metagenomics, or any other application requiring sample preparation for NGS.

Construction of next generation sequencing (NGS) libraries using competitive strand displacement

In some embodiments, the present inventions relates generally to compositions, methods and kits for use in discriminating sequence variation between different alleles. More specifically, in some embodiments, the present invention provides for compositions, methods and kits for quantitating rare (e.g., mutant) allelic variants, such as SNPs, or nucleotide (NT) insertions or deletions, in samples comprising abundant (e.g., wild type) allelic variants with high specificity and selectivity. In particular, in some embodiments, the invention relates to a highly selective method for mutation detection referred to as competitive allele-specific TaqMan PCR ('cast-PCR').

Methods, compositions, and kits for detecting allelic variants

In some embodiments, the present inventions relates generally to compositions, methods and kits for use in discriminating sequence variation between different alleles. More specifically, in some embodiments, the present invention provides for compositions, methods and kits for quantitating rare (e.g., mutant) allelic variants, such as SNPs, or nucleotide (NT) insertions or deletions, in samples comprising abundant (e.g., wild type) allelic variants with high specificity and selectivity. In particular, in some embodiments, the invention relates to a highly selective method for mutation detection referred to asompetitivellele-pecificaqMan PCR ('cast-PCR').

The present disclosure is drawn to methods for detection, quantitation and analysis of nucleotides of interest, for example SNPs, in nucleic acid sequences of interest using universal FRET-based reporter primers.

Universal reporter-based genotyping methods and materials

Methods, compositions and kits for capturing, detecting and quantifying mature small RNAs are provided herein. Embodiments of the methods comprise ligating 5' and 3&#x2032; ligation adaptors to the 5&#x2032; and 3&#x2032; ends of the mature small RNAs, respectively, in the presence of 5&#x2032; and 3&#x2032; semi-degenerate ligation splints to generate a ligation product. Other embodiments comprise reverse transcribing polyadenylated mature small RNA with a universal reverse transcription primer and ligating an adaptor to the 3&#x2032; end of the cDNA in the presence of a semi-degenerate ligation splint to generate a cDNA ligation product.

Small RNA capture, detection and quantification

This disclosure relates to methods and kits for karyotyping in which chromosomes are interrogated by amplifying loci that are not within copy number variable regions thereof.

Karyotyping assay

The invention can be used to provide a more efficient and less error-prone method of detecting variants in DNA, such as SNPs and indels. The invention also provides a method for performing inexpensive multiplex assays. The invention also provides methods for detection of DNA sequences altered after cleavage by a targetable endonuclease, such as the CRISPR Cas9 protein from the bacterium

Methods for variant detection

The present invention is directed to methods, reagents, kits, and compositions for identifying and quantifying target polynucleotide sequences. A linker probe comprising a 3' target specific portion, a loop, and a stem is hybridized to a target polynucleotide and extended to form a reaction product that includes a reverse primer portion and the stem nucleotides. A detector probe, a specific forward primer, and a reverse primer can be employed in an amplification reaction wherein the detector probe can detect the amplified target polynucleotide based on the stem nucleotides introduced by the linker probe. In some embodiments a plurality of short miRNAs are queried with a plurality of linker probes, wherein the linker probes all comprise a universal reverse primer portion a different 3&#x2032; target specific portion and different stems. The plurality of queried miRNAs can then be decoded in a plurality of amplification reactions.

Growing community of inventors

Palo Alto, CA, United States of America

Caifu Chen